Curriculum Vitae : Zhongtang Yu
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EDUCATION:
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Ph.D. in Molecular Biology, 1997, New Mexico State University, Las Cruces, New Mexico.
M.Sc. in Biology (with a minor in Environmental Toxicology), 1995, New Mexico State
University, New Mexico.
B.Sc. in Biology, 1982, Shandong Normal University, Jinan, China.
PROFESSIONAL EXPERIENCE:
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Assistant Professor, 10/2008-present, Dept. of Animal Sciences, and Ohio Agricultural
Research Development Center, The Ohio State University, Columbus, Ohio.
Research Assistant Professor, 07/2006-09/2008, Dept. of Animal Sciences, and Ohio
Agricultural Research Development Center, The Ohio State University, Columbus, Ohio.
Research Scientist, 2003 to 06/2005. Dept. of Animal Sciences, The Ohio State University.
Senior Associate Research Scientist, 2001 to 2002. Dept. of Animal Sciences, The Ohio State
University.
Research Associate, 1999 to 2000, Department of Microbiology and Immunology,
University of British Columbia.
Postdoctoral Research Fellow, 1997 to 1998, Department of Microbiology and Immunology,
University of British Columbia.
Visiting Scientist, 1991 to 1992. Royal Institute of Technology, Stockholm, Sweden.
Lecturer, 1985 to 1991. Department of Civil and Environmental Engineering, Qingdao
Technological University, Qingdao, China.
CURRENT AFFILIATION:
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American Association for Microbiology (ASM)
International Society for Microbial Ecology (ISME)
Ad hoc reviewer of USDA/NRI, NIH, and NSF research proposals.
Reviewer for Applied and Environmental Microbiology, Microbial Ecology, Letters in
Applied Microbiology, Journal of Applied Microbiology, Journal of Animal Science, Journal
of Dairy Science, Biotechniques, Current Microbiology, Research in Microbiology.
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Editorial Board: Journal of Environmental Science.
PUBLICATIONS
I. Peer Reviewed Journal Articles
60. Nelson, M.C., M. Morrison, and Z. Yu (2010). A meta-analysis of the microbial
diversity observed in anaerobic digesters. Bioresource Technology, in press.
59. Cressman, M.D., Z. Yu, M.S. Lilburn, M.C. Nelson, S.J. Moeller, and H.N. Zerby
(2010). Interrelations between the microbiotas in the litter and the intestines of
commercial broiler chickens. Applied and Environmental Microbiology, 76(19):
6572-6582.
58. Kim, M.S., M. Morrison, and Z. Yu (2010). Status of the phylogenetic diversity census
of ruminal microbiomes. FEMS Microbiology Ecology, in press.
57. Kim, M.S., M. Morrison, and Z. Yu (2011). Evaluation of different partial 16S rRNA
gene sequence regions for phylogenetic analysis of microbiomes. J. Microbiol Methods,
84(1): 81-87.
56. Lv, W., F.L. Schanbacher, Z. Yu (2010). Put microbes to work in sequence: recent
advances in temperature-phased anaerobic digestion processes. Bioresource
Technology, 101(24): 9409-9414.
55. Zhao, S., D. Bu, J. Wang , K. Liu, Y. Zhu, Z. Dong, and Z. Yu (2010). Novel glycoside
hydrolases from a metagenome library of the rumen of Chinese Holstein dairy cows.
Applied and Environmental Microbiology, 76(19):6701-6705.
54. Kongmun, P., M. Wanapat, P. Pakdee, C. Navanukraw and Z. Yu (2011).
Manipulation of rumen fermentation and ecology of swamp buffalo by coconut oil
and garlic powder supplementation. Livestock Sciences, 135(1): 84-92.
53. Liu, S.J., J.Q. Wang, D.P. Bu, H,Y. Wei, L.Y. Zhou, and Z. Yu (2010). Impact of
ruminal infusion of polyunsaturated fatty acids on ruminal microbial populations,
and duodenal flow and milk profiles of fatty acids. Journal of Dairy Science, in press.
52. Rismani-Yazdi, H., A.D. Christy, S.M. Carver, Z. Yu, B.A. Dehority, O.H. Tuovinen
(2010). Effect of external resistance on bacterial diversity and metabolism in
microbial fuel cells. Bioresource Technology, 102: 278-283.
51. Kang, S., S.E. Denman, M. Morrison, Z. Yu, J. Dore, M. Leclerc, and C.S. McSweeney
(2010). Dysbiosis of faecal microbiota in Crohn’s disease patients as revealed by a
custom phylogenetic microarray. Inflammatory Bowel Disease, 16(12):2034-2042.
50. Chen, J., F.C. Michel Jr., S. Sreevatsan, M. Morrison, and Z. Yu (2010). Occurrence
and persistence of erythromycin resistance genes (erm) and tetracycline resistance
genes (tet) in waste treatment systems on swine farms. Microbial Ecology,
60(3):479-486.
49. Karnati, S.K.R., Z. Yu, and J.L. Firkins (2009). Investigating unsaturated fat,
monensin, or bromoethanesulfonate in continuous cultures retaining ruminal
protozoa. II. Interaction of treatment and presence of protozoa on prokaryotic
communities. Journal of Dairy Science, 92:3861-3873.
48. Kang, S., S.E. Denman, M. Morrison, Z. Yu, and C.S. McSweeney (2009). An efficient
RNA extraction method for the estimation of gut microbial diversity by PCR. Current
Microbiology, 58(5): 464-471.
47. Sharma, R., J. Chen, E. Topp, J. Yanke, F. Larney T. McAllister, M. Morrison, and Z.
Yu (2009). Detection and quantification of antimicrobial resistance during
composting of bovine manure collected from animals administered sub-therapeutic
antimicrobials in Southern Alberta. Journal of Environmental Quality, 38:356-575.
46. Ezer, A, E. Matalon, S. Jindou, I. Borovok, N. Atamna, Z. Yu, M. Morrison, E.A. Bayer,
and R. Lamed (2008). Cell surface enzyme attachment is mediated by family 37
carbohydrate-binding modules, unique to Ruminococcus albus. Journal of Bacteriology,
190:8220-8222.
45. Firkins, J.L., S.K.R. Karnati, Z. Yu (2008). Linking rumen function to animal response
by application of metagenomics techniques. Australian Journal of Experimental
Agriculture, 2008, 48(7):711-721.
44. Yu, Z., R. García-González, and M. Morrison (2008). Evaluations of different
hypervariable regions of archaeal rrs in profiling of methanogens by Archaea-specific
PCR and denaturing gradient gel electrophoresis. Applied and Environmental
Microbiology, 74:889-893.
43. Chen, J., F. Fluharty, N. St-Pierre, M. Morrison, and Z. Yu (2008). Occurrence in fecal
microbiota
of
genes
conferring
resistance
to
both
macrolide-lincosamide-streptogramin B (MLSB) and tetracyclines concurrent with
feeding of beef cattle with tylosin. Journal of Animal Science, 86:2385-2391.
42. Anderson, K., Z. Yu, J. Chen, J. Jenkins, P. Courtney, Mark. Morrison (2008).
Analyses of Bifidobacterium, Lactobacillus, and total bacterial populations in healthy
volunteers consuming calcium gluconate by denaturing gradient gel electrophoresis
and real-time PCR. International Journal of Probiotics and Prebiotics, 3:31-36.
41. Chen, J., Z. Yu, F.C. Michel, T. Wittum, M. Morrison (2007). Development and
application of real-time PCR assays for quantification of erm genes conferring
resistance to macrolide-lincosamides-streptogramin B in livestock manure and
manure management systems. Applied and Environmental Microbiology, 73:
4407-4416.
40. Rismani-Yazdi, H., A.D. Christy, B.A. Dehority, M. Morrison, Z. Yu, and O.H.
Tuovinen (2007). Electricity generation from cellulose by rumen microorganisms in
microbial fuel cells. Biotechnology and Bioengineering, 97:1398-1407.
39. Manuzon, M.Y., S.E. Hanna, H. Luo, Z. Yu, W.J. Harper and H.H. Wang (2007).
Quantitative assessment of antibiotic resistance gene pool in cheese samples by
real-time TaqMan® PCR. Applied and Environmental Microbiology, 73:1676-1677.
38. Firkins, J.L., Z. Yu, and M. Morrison (2007). Ruminal Nitrogen Metabolism:
Perspectives for Integration of Microbiology and Nutrition for Dairy. Journal of Dairy
Science, 90(E. Suppl.):E1–E16.
37. Karnati, S.K.R., J.T. Sylvester, S.M. Noftsger, Z. Yu, N.R. St-Pierre, and J.L. Firkins
(2007). Assessment of ruminal bacterial populations and protozoal generation time
in cows fed different methionine sources. Journal of Dairy Science, 90:798–809.
36. McSweeney, C.S., S. E. Denman, A.-D. G. Wright and Z. Yu (2007). Application of
recent DNA/RNA-based techniques in rumen ecology. Asian-Australian Journal of
Animal Science, 20:283-291.
35. Yu, Z., M. Yu, and M. Morrison (2006). Improved serial analysis of V1 ribosomal
sequence tags (SARST-V1) to support examination of bacterial diversity and
community composition. Environmental Microbiology, 8:603-611.
34. Yu, Z., F. C. Michel, G. Hansen, T. Wittum, and M. Morrison (2005). Development
and application of real-time PCR assays for quantification of genes encoding
tetracycline resistance. Applied and Environmental Microbiology, 71:6926-6933.
33. Larue, R., Z. Yu, V. A. Parisi, and M. Morrison (2005). Ribosomal intergenic spacerand DGGE-based analyses of microbial consortia associated with liquid and
particulate fractions of rumen digesta. Environmental Microbiology, 7:530-540.
32. Sylvester, J.T., S.K.R. Karnati, Z. Yu, M. Morrison, and J.L. Firkins (2005). Evaluation
of a real-time PCR assay for measuring the ruminal pool and duodenal flow of
protozoal nitrogen. Journal of Dairy Science, 88:2083-2095.
31. Sylvester, J.T., S.K.R. Karnati, Z. Yu, M. Morrison, and J.L. Firkins (2004).
Development of an assay to quantify rumen ciliate protozoal biomass in cows using
real-time PCR. Journal of Nutrition, 134:3378-3384.
30. Yu, Z. and M. Morrison (2004). Comparisons of different hypervariable regions of rrs
genes for use in fingerprinting of microbial communities by PCR-denaturing
gradient gel electrophoresis. Applied and Environmental Microbiology, 70:4800-4806.
29. Yu, Z. and M. Morrison (2004). Improved extraction of PCR-quality community DNA
from digesta and fecal samples. BioTechniques, 36:808-812.
28. Neufeld, J. D., Z. Yu, W. Lam, and W. W. Mohn (2004). Serial Analysis of Ribosomal
Sequence Tags (SARST): a high-throughput method for profiling complex microbial
communities. Environmental Microbiology, 6:131-144.
27. Smith, N., Z. Yu, and W.W. Mohn (2003). Stability of the bacterial community in a
pulp mill effluent treatment system during normal operation and a system
shutdown. Water Research, 37:4873-4884.
26. Eriksson, M, E. Sodersten, Z. Yu, G. Dalhammar, W.W. Mohn (2003). Degradation of
polycyclic aromatic hydrocarbons at low temperature under aerobic and
nitrate-reducing conditions in enrichment cultures from northern soils. Applied and
Environmental Microbiology, 69:275-284.
25. Karnati, S.K.R., Z. Yu, J.T. Sylvester, B.A. Dehority, M. Morrison, and J.L. Firkins
(2003). Specific PCR amplification of protozoan 18S rDNA sequences from DNA
extracted from rumen samples of cows for ecological analysis of ruminal protozoa.
Journal of Animal Science, 81:812-815.
24. Yu, Z. and W.W. Mohn (2002). Bioaugmentation with the resin acid-degrading
bacterium Zoogloea resiniphila DhA-35 to counteract pH stress in an aerated lagoon
treating pulp and paper mill effluent. Water Research, 36:2793-2801.
23. Thomassin-Lacroix, E.J., Z. Yu, M. Erikson, K.J. Reimer, and W.W. Mohn (2001).
DNA-based and culture-based characterization of a hydrocarbon-degrading
consortium enriched from arctic soil. Canadian Journal of Microbiology, 47:1107-1115.
22. Muttray, A.F., Z. Yu, and W.W. Mohn (2001). Population dynamics and metabolic
activity of Pseudomonas abietaniphila BKME-9 within pulp mill wastewater microbial
communities assayed by competitive PCR and RT-PCR. FEMS Microbiology Ecology,
38:21-31.
21. Ka, Jong-Ok, Z. Yu, and W.W. Mohn (2001). Monitoring the size and metabolic
activity of the bacterial community during biostimulation of fuel-contaminated soil
using competitive PCR and RT-PCR. Microbial Ecology, 42:267-273.
20. Yu, Z. and W.W. Mohn (2001). Bacterial diversity and community structure in an
aerated lagoon revealed by ribosomal intergenic spacers analyses and 16S-rDNA
sequencing. Applied and Environmental Microbiology, 67:1565-1574.
19. Yu, Z. and W.W. Mohn (2001). Bioaugmentation with resin acid-degrading bacteria
enhances resin acid removal in sequencing batch reactors treating pulp mill effluents.
Water Research, 35:883-890.
18. Yu, Z., G.R. Steward, and W.W. Mohn (2000). Apparent contradiction:
psychrotolerant bacteria from hydrocarbon-contaminated Arctic tundra soils that
degrade diterpenoids
synthesized by trees. Applied and Environmental
Microbiology, 66:5148-5154.
17. Yu, Z. and G.B. Smith (2000). Inhibition of methanogenesis by C1- and
C2-polychlorinated aliphatic hydrocarbons. Environmental Toxicology and Chemistry,
19:2212–2217.
16. Yu, Z. and G.B. Smith (2000). Dechlorination of polychlorinated methanes by a
sequential methanogenic-denitrifying bioreactor system. Applied Microbiology and
Biotechnology, 53:484-489.
15. Mohn, W.W., Z. Yu, and A. Muttray (2000). Lessons learned from Sphingomonas
species that degrade abietane diterpenoids. Journal of Industrial Microbiology and
Biotechnology, 23:374-379.
14. Mohn, W.W., V. Martin, and Z. Yu (1999). Biochemistry and ecology of resin acid
biodegradation in pulp and paper mill effluent treatment systems. Water Science and
Technology, 40:273-280.
13. Martin, V., Z. Yu, and W.W. Mohn (1999). Recent advances in understanding resin
acid biodegradation: microbial diversity and metabolism. Archives of Microbiology,
172:131-138.
12. Yu, Z. and W.W. Mohn (1999). Occurrence of two resin acid-degrading bacteria and a
gene encoding resin acid biodegradation in pulp and paper mill effluent
biotreatment systems assayed by PCR. Microbial Ecology, 38: 114-125.
11. Yu, Z. and W.W. Mohn (1999). Isolation and characterization of thermophilic
bacteria capable of degrading dehydroabietic acids. Canadian Journal of
Microbiology, 45:513-520.
10. Yu, Z., P. Sahota, and W.W. Mohn (1999). Enhancement of resin acid removal in
sequencing batch reactors treating pulp mill effluents by bioaugmentation with resin
acid-degrading bacteria. Proceedings of Annual Conference of Canadian Pulp and Paper
Association (Pacific Coast Branch), Parksville, Canada, pp. 61-68.
09. Yu, Z. and W.W. Mohn (1999). Microbial population dynamics of resin
acid-degrading bacteria in biotreatment systems of pulp mill effluents. Proceedings
of Science and Practice: Sustaining the Boreal Forest, Edmonton, Canada, pp.282-287.
08. Mohn, W.W., V. Martin, A. Muttray, and Z. Yu (1999). Peeking into the black box:
resin acid-degrading microbial populations in treatment systems for pulp mill
effluent. Proceedings of Science and Practice: Sustaining the Boreal Forest, Edmonton,
Canada, pp.276-281.
07. Yu, Z. and W.W. Mohn (1999). Killing two birds with one stone: simultaneous
extraction of DNA and RNA from activated sludge biomass. Canadian Journal of
Microbiology, 45:269-272.
06. Mohn, W.W., A. Muttray, and Z. Yu (1998). Ecological studies of resin
acid-degrading bacteria in biological treatment systems using molecular probes.
Proceedings of 7th International Conference on Biotechnology in Pulp and Paper Industry,
Vancouver, Canada, Vol. C. pp.223-226.
05. Yu, Z. and G.B. Smith (1997). Chloroform dechlorination by a wastewater
methanogenic consortium and cell extracts of Methanosarcina barkeri. Water Research,
31:1879-1886.
II. Book chapters
07. Yu, Z. and M. Morrison (2010). Sequence-Based Characterization of Microbiomes by
Serial Analysis of Ribosomal Sequence Tags (SARST). In F.J. de Bruijn (ed.)
Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary
Approaches, Wiley/Blackwell, Hoboken, NJ.
06. Yu, Z. and F.L. Schanbacher (2010). Production of methane biogas through anaerobic
digestion. p. 105-127. In O.V. Singh and S.P. Harvey (eds.), Sustainable
Biotechnology: renewable resources and new perspectives. Springer, The
Netherland.
05. Yu, Z., M. Morriosn, and F.L. Schanbacher (2010). Production and utilization of
methane biogas as renewable fuel. P. 403-433. In A. Vertes, N. Qureshi, H. Blaschek,
and H. Yukawa (eds.), Biomass to Biofuel: Strategies for global industries. Wiley &
04.
03.
02.
01.
Sons, Hoboken, NJ.
Yu, Z. and M. Morrison (2009). The animal and human gut ecosystems. P. 19-40. In
L.A. Jaykus, H. Wang, and L. Schlesinger (eds.), Foodborne Microbes: Shaping the
host ecosystem. ASM Press. USA.
Firkins, J.L. and Z. Yu (2006). Characterisation and quantification of the microbial
populations of the rumen. Pages 19-54 in Ruminant Physiology, Digestion,
Metabolism and Impact of Nutrition on Gene Expression, Immunology and Stress. K.
Sejrsen, T. Hvelplund, and M.O. Nielsen, eds. Wageningen Academic Publishers,
Wageningen, The Netherlands.
Neufeld, J.D., Z. Yu, W. Lam, W.W. Mohn (2005). SARST, Serial Analysis of
Ribosomal Sequence Tags. P.543-568. In G.G. Kowalchuk, F.J. de Bruijn, I.M. Head,
A.D. Akkermans, and J.D. van Elsas (eds.), Molecular Microbial Ecology Manual,
2nd Ed. Kluwer Academic Publishers, The Netherlands.
Yu, Z. and R. Forsberg (2005). Nucleic acid extraction, oligonucleotide probes and
PCR methods. P. 81-104. In H.P.S. Makkar and C.S. McSweeney (eds.), Methods in
Gut Microbial Ecology for Ruminants. Springer, The Netherlands.
III. Papers in proceedings
05. Wang, L., Y. Oda, S. Grewal, F.C. Michel Jr., M. Morrison1, and Z. Yu (2009).
Reduction of resistance to macrolide-lincosamide-streptogramin B and tetracycline
during thermophilic composting of swine manures. Proceedings ORBIT 2009.
04. Yu, Z., M. Cressman, S. Wei, M. Lilburn, and M. Morrison (2008). A molecular view
of the intestinal microbiota in poultry. Proceedings XI International Poultry Seminar
Series. 2008.
03. Michel Jr., F.C., J. Chen, L. Wang, S. Sreevatsan, M. Morrison and Z. Yu (2008). PCR
quantification of antibiotic resistance genes in composted and liquid stored manures.
Proceedings ORBIT 2008.
02. Yu, Z. and J. Firkins (2007). The predator within – protozoa in the rumen and the
impact on rumen nutrition. The 6th Joint symposium of China-Korea-Japan on rumen
metabolism and physiology. Hangzhou, China.
01. Yu, Z. and M. Morrison (2007). Antimicrobial resistance genes in livestock
production systems: concept and consequences. p.439-455. In X. Meng, L.P. Ren and
Z.J. Cao (eds.) Herbivore nutrition for the development of efficient, safe and
sustainable livestock production. China Agricultural University Press.